python main.py Fig.5A_8e-dCH-330.380_S40_L001_R1_001.fastq.gz out/Fig.5A_8e-dCH-330.380_S40_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_8e-dCH-541.420_S40_L001_R1_001.fastq.gz out/Fig.5A_8e-dCH-541.420_S40_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_8e-dCH-541.420_S50_L001_R1_001.fastq.gz out/Fig.5A_8e-dCH-541.420_S50_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_8e-dCH-ctrl_S30_L001_R1_001.fastq.gz out/Fig.5A_8e-dCH-ctrl_S30_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_330.380-8e-dCH_S145_L001_R1_001.fastq.gz out/Fig.5A_330.380-8e-dCH_S145_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_330.380-UT_S147_L001_R1_001.fastq.gz out/Fig.5A_330.380-UT_S147_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_541.420-8e-dCH_S148_L001_R1_001.fastq.gz out/Fig.5A_541.420-8e-dCH_S148_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_541.420-UT_S150_L001_R1_001.fastq.gz out/Fig.5A_541.420-UT_S150_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_ctrl-8e-dCH_S24_L001_R1_001.fastq.gz out/Fig.5A_ctrl-8e-dCH_S24_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_ctrl-8e-dCH_S25_L001_R1_001.fastq.gz out/Fig.5A_ctrl-8e-dCH_S25_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_ctrl-UT_S26_L001_R1_001.fastq.gz out/Fig.5A_ctrl-UT_S26_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_ctrl-ut_S30_L001_R1_001.fastq.gz out/Fig.5A_ctrl-ut_S30_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_FA330.380-UT_S48_L001_R1_001.fastq.gz out/Fig.5A_FA330.380-UT_S48_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_FA541.420-UT_S58_L001_R1_001.fastq.gz out/Fig.5A_FA541.420-UT_S58_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_UT-330.380_S38_L001_R1_001.fastq.gz out/Fig.5A_UT-330.380_S38_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_UT-541.420_S55_L001_R1_001.fastq.gz out/Fig.5A_UT-541.420_S55_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
python main.py Fig.5A_UT1-ctrl_S19_L001_R1_001.fastq.gz out/Fig.5A_UT1-ctrl_S19_L001_R1_001 -a GGGAGGCCTAGGAAGGTGGATCACCTGAGGTCCGGAGTTCAAGACTAACCTGGCCAACATGGTGAAACCCAGTATCTACTAAAAAATACAAAAAAAAAAAAAAAA(GAA|GRR)AATAAAGAAAAGTTAGCCGGGCGTGGTGTCGCGCGCCTGTAATCCCAGCTACTCCAGA -rc --no_trim -amas 80
